bokunobike / m6age

A predictor for m6A sites.

m6AFinder

Description

M6AFinder is a predictor for N6-methyladenosine (m6A) sites identification utilizing sequence characteristics and graph embedding-based geometrical information.

Requirements

The code is based on python 3.7 It depends on several python packages, such as numpy, scikit-learn, networkx, pandas, catboost, karateclub.

• conda install numpy, pandas, scikit-learn, biopython, networkx
• pip install catboost, karateclub

Usage

Command line usage:

$python main.py [-pos_fa pos_fa] [-neg_fa neg_fa] [-test_fa test_fa]
         [-dataset dataset] [-out out]

for example:

$python main.py -pos_fa ./datasets/A101/A101_Train_P.fasta -neg_fa ./datasets/A101/A101_Train_N.fasta -test_fa ./datasets/A101/A101_Test.fasta -dataset A101 -out ./results/A101_results.csv